Analysis outputs for assays for this trial.
Description: Reference for every available assay in network.
Properties
| Property | Description | Data Type |
|---|---|---|
| wes_analysis | Combined analysis files for the whole WES assay. | assays.wes_analysis |
| wes_tumor_only_analysis | Combined analysis files for the whole WES assay. | assays.wes_tumor_only_analysis |
| rna_analysis | Combined analysis files for the whole RNAseq assay. | assays.components.ngs.rna.rna_analysis |
| tcr_analysis | Output files generated from the TCRseq assay: TRA and TRB clones | assays.tcr_analysis |
| atacseq_analysis | Analysis for Assay for Transposase-Accessible Chromatin by sequencing (ATACseq). |
<
array
>
|
available_ngs_analyses.full.json
{
"$id": "available_ngs_analyses",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Reference for every available assay in network.",
"mergeStrategy": "objectMerge",
"properties": {
"atacseq_analysis": {
"description": "Analysis for Assay for Transposase-Accessible Chromatin by sequencing (ATACseq).",
"items": {
"$id": "atacseq_analysis",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"definitions": {
"entry": {
"additionalProperties": false,
"description": "A single analysis record from ATACseq analysis.",
"mergeStrategy": "objectMerge",
"properties": {
"aligned_sorted_bam": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of an sample within this clinical trial, that this assay record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"comments": {
"description": "Comments on the ATACseq analysis run.",
"type": "string"
},
"peaks": {
"additionalProperties": false,
"mergeStrategy": "objectMerge",
"properties": {
"sorted_peaks_bed": {
"$id": "bed_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BED file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BED",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BED Artifact",
"type": "object"
},
"sorted_peaks_narrowpeak": {
"$id": "narrowPeak_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a narrowPeak file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "NARROWPEAK",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "narrowPeak Artifact",
"type": "object"
},
"sorted_summits": {
"$id": "bed_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BED file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BED",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BED Artifact",
"type": "object"
},
"treat_pileup": {
"$id": "bigwig_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BIGWIG file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BIGWIG",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BIGWIG Artifact",
"type": "object"
}
},
"required": [
"sorted_peaks_bed",
"sorted_peaks_narrowpeak",
"sorted_summits",
"treat_pileup"
],
"type": "object"
}
},
"required": [
"cimac_id",
"peaks",
"aligned_sorted_bam"
],
"type": "object"
},
"peaks": {
"additionalProperties": false,
"mergeStrategy": "objectMerge",
"properties": {
"sorted_peaks_bed": {
"$id": "bed_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BED file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BED",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BED Artifact",
"type": "object"
},
"sorted_peaks_narrowpeak": {
"$id": "narrowPeak_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a narrowPeak file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "NARROWPEAK",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "narrowPeak Artifact",
"type": "object"
},
"sorted_summits": {
"$id": "bed_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BED file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BED",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BED Artifact",
"type": "object"
},
"treat_pileup": {
"$id": "bigwig_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BIGWIG file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BIGWIG",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BIGWIG Artifact",
"type": "object"
}
},
"required": [
"sorted_peaks_bed",
"sorted_peaks_narrowpeak",
"sorted_summits",
"treat_pileup"
],
"type": "object"
}
},
"properties": {
"batch_id": {
"description": "ATACseq batch identification number. Unique to every batch.",
"type": "string"
},
"excluded_samples": {
"$id": "excluded_samples",
"$schema": "metaschema/strict_meta_schema.json#",
"description": "A list of samples excluded from analysis, along with the reasons why.",
"items": {
"additionalProperties": false,
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"reason_excluded": {
"description": "A comment describing why this sample is missing from the pipeline output.",
"type": "string"
}
},
"required": [
"cimac_id",
"reason_excluded"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"records": {
"items": {
"additionalProperties": false,
"description": "A single analysis record from ATACseq analysis.",
"mergeStrategy": "objectMerge",
"properties": {
"aligned_sorted_bam": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of an sample within this clinical trial, that this assay record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"comments": {
"description": "Comments on the ATACseq analysis run.",
"type": "string"
},
"peaks": {
"additionalProperties": false,
"mergeStrategy": "objectMerge",
"properties": {
"sorted_peaks_bed": {
"$id": "bed_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BED file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BED",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BED Artifact",
"type": "object"
},
"sorted_peaks_narrowpeak": {
"$id": "narrowPeak_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a narrowPeak file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "NARROWPEAK",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "narrowPeak Artifact",
"type": "object"
},
"sorted_summits": {
"$id": "bed_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BED file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BED",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BED Artifact",
"type": "object"
},
"treat_pileup": {
"$id": "bigwig_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BIGWIG file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BIGWIG",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BIGWIG Artifact",
"type": "object"
}
},
"required": [
"sorted_peaks_bed",
"sorted_peaks_narrowpeak",
"sorted_summits",
"treat_pileup"
],
"type": "object"
}
},
"required": [
"cimac_id",
"peaks",
"aligned_sorted_bam"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"report": {
"$id": "zip_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a ZIP file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "ZIP",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "ZIP Artifact",
"type": "object"
}
},
"required": [
"records",
"batch_id"
],
"title": "Analysis for Assay of Transposase-Accessible Chromatin by Sequencing",
"type": "object"
},
"mergeOptions": {
"idRef": "batch_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"rna_analysis": {
"$id": "rna_analysis",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Combined analysis files for the whole RNAseq assay.",
"properties": {
"excluded_samples": {
"$id": "excluded_samples",
"$schema": "metaschema/strict_meta_schema.json#",
"description": "A list of samples excluded from analysis, along with the reasons why.",
"items": {
"additionalProperties": false,
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"reason_excluded": {
"description": "A comment describing why this sample is missing from the pipeline output.",
"type": "string"
}
},
"required": [
"cimac_id",
"reason_excluded"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"level_1": {
"items": {
"$id": "rna_level1_analysis",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "RNAseq assay output files for a sample level 1 analysis.",
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"comments": {
"description": "Comments on the RNAseq analysis run.",
"type": "string"
},
"error": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"fusion": {
"$id": "fusion",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Fusion output sample files.",
"properties": {
"fusion_predictions": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"fusion_predictions"
],
"title": "RNAseq Fusion Output Files",
"type": "object"
},
"microbiome": {
"$id": "microbiome",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Microbiome output sample files.",
"properties": {
"sample_report": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"sample_report"
],
"title": "RNAseq Microbiome Output Files",
"type": "object"
},
"msisensor": {
"$id": "msisensor",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Msisensor output sample files.",
"properties": {
"msisensor_report": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"msisensor_report"
],
"title": "RNAseq msisensor Output Files",
"type": "object"
},
"neoantigen": {
"$id": "neoantigen",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Neoantigen output sample files.",
"properties": {
"genotype": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
}
},
"required": [
"genotype"
],
"title": "RNAseq Neoantigen Output Files",
"type": "object"
},
"rseqc": {
"$id": "star",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Star output sample files.",
"properties": {
"read_distrib": {
"$id": "binary_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a binary file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BINARY",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Binary Artifact",
"type": "object"
},
"tin_score": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"tin_score_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"read_distrib",
"tin_score_summary",
"tin_score"
],
"title": "RNAseq Star Output Files",
"type": "object"
},
"salmon": {
"$id": "star",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Star output sample files.",
"properties": {
"aux_info_ambig_info_tsv": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"aux_info_expected_bias": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"aux_info_fld": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"aux_info_meta_info": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
},
"aux_info_observed_bias": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"aux_info_observed_bias_3p": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"cmd_info": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
},
"quant_sf": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"salmon_quant_log": {
"$id": "log_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a log file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "LOG",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "LOG Artifact",
"type": "object"
},
"transcriptome_bam_log": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"quant_sf",
"transcriptome_bam_log",
"aux_info_ambig_info_tsv",
"aux_info_expected_bias",
"aux_info_fld",
"aux_info_meta_info",
"aux_info_observed_bias",
"aux_info_observed_bias_3p",
"cmd_info",
"salmon_quant_log"
],
"title": "RNAseq Star Output Files",
"type": "object"
},
"star": {
"$id": "star",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Star output sample files.",
"properties": {
"chimeric_out_junction": {
"$id": "junction_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JUNCTION file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JUNCTION",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JUNCTION Artifact",
"type": "object"
},
"sorted_bam": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"sorted_bam_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
},
"sorted_bam_stat_txt": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"transcriptome_bam": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
}
},
"required": [
"sorted_bam",
"sorted_bam_index",
"sorted_bam_stat_txt",
"transcriptome_bam",
"chimeric_out_junction"
],
"title": "RNAseq Star Output Files",
"type": "object"
},
"trust4": {
"$id": "trust4",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"description": "Trust4 output sample files.",
"properties": {
"trust4_report": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"trust4_report"
],
"title": "RNAseq Trust4 Output Files",
"type": "object"
}
},
"required": [
"cimac_id",
"star",
"rseqc",
"salmon",
"microbiome",
"trust4",
"neoantigen",
"msisensor",
"fusion"
],
"title": "RNAseq Level 1 Sample Analysis Output Files",
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
}
},
"title": "RNAseq analysis combined files",
"type": "object"
},
"tcr_analysis": {
"$id": "tcr_analysis",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"definitions": {
"batch": {
"additionalProperties": false,
"description": "Output files generated from the TCRseq assay: TRA and TRB clones",
"properties": {
"batch_id": {
"description": "TCRseq batch identification number.",
"type": "string"
},
"excluded_samples": {
"$id": "excluded_samples",
"$schema": "metaschema/strict_meta_schema.json#",
"description": "A list of samples excluded from analysis, along with the reasons why.",
"items": {
"additionalProperties": false,
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"reason_excluded": {
"description": "A comment describing why this sample is missing from the pipeline output.",
"type": "string"
}
},
"required": [
"cimac_id",
"reason_excluded"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"records": {
"items": {
"additionalProperties": false,
"description": "Output files generated from the TCRseq assay: TRA and TRB clones",
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"comments": {
"description": "Comments on the TCR analysis run.",
"type": "string"
},
"tra_clone": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
},
"trb_clone": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
}
},
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"report_trial": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"summary_info": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
}
},
"required": [
"batch_id"
],
"type": "object"
},
"entry": {
"additionalProperties": false,
"description": "Output files generated from the TCRseq assay: TRA and TRB clones",
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"comments": {
"description": "Comments on the TCR analysis run.",
"type": "string"
},
"tra_clone": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
},
"trb_clone": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
}
},
"type": "object"
}
},
"description": "Output files generated from the TCRseq assay: TRA and TRB clones",
"properties": {
"batches": {
"items": {
"additionalProperties": false,
"description": "Output files generated from the TCRseq assay: TRA and TRB clones",
"properties": {
"batch_id": {
"description": "TCRseq batch identification number.",
"type": "string"
},
"excluded_samples": {
"$id": "excluded_samples",
"$schema": "metaschema/strict_meta_schema.json#",
"description": "A list of samples excluded from analysis, along with the reasons why.",
"items": {
"additionalProperties": false,
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"reason_excluded": {
"description": "A comment describing why this sample is missing from the pipeline output.",
"type": "string"
}
},
"required": [
"cimac_id",
"reason_excluded"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"records": {
"items": {
"additionalProperties": false,
"description": "Output files generated from the TCRseq assay: TRA and TRB clones",
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"comments": {
"description": "Comments on the TCR analysis run.",
"type": "string"
},
"tra_clone": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
},
"trb_clone": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
}
},
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"report_trial": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"summary_info": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
}
},
"required": [
"batch_id"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/batch_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
}
},
"title": "TCR Output Files",
"type": "object"
},
"wes_analysis": {
"$id": "wes_analysis",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"definitions": {
"pair_analysis": {
"additionalProperties": false,
"description": "Whole Exome Sequencing assay output files for a tumor normal pair of samples.",
"properties": {
"clonality": {
"additionalProperties": false,
"description": "Clonality output files.",
"properties": {
"clonality_pyclone": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"clonality_table": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"clonality_pyclone",
"clonality_table"
],
"type": "object"
},
"comments": {
"description": "Comments on the paired analysis run.",
"type": "string"
},
"copynumber": {
"additionalProperties": false,
"description": "Copy number output files.",
"properties": {
"copynumber_cnv_calls": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"copynumber_cnv_calls_tsv": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"copynumber_cnv_calls",
"copynumber_cnv_calls_tsv"
],
"type": "object"
},
"corealignments": {
"additionalProperties": false,
"description": "Core-alignments output files.",
"properties": {
"tn_corealigned": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"tn_corealigned_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [],
"type": "object"
},
"error": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"ignore": {
"$comment": "added for backwards compatibility",
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"msisensor": {
"additionalProperties": false,
"description": "MSISensor2 output files.",
"properties": {
"msisensor": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"msisensor"
],
"type": "object"
},
"neoantigen": {
"additionalProperties": false,
"description": "Neoantigen output files.",
"properties": {
"HLA_results": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"combined_filtered": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"HLA_results",
"combined_filtered"
],
"type": "object"
},
"normal": {
"additionalProperties": false,
"description": "Sample wise analysis files for the WES assay.",
"properties": {
"alignment": {
"additionalProperties": false,
"description": "WES output align files.",
"properties": {
"align_recalibrated": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_recalibrated_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
},
"align_sorted_dedup": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_sorted_dedup_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [
"align_sorted_dedup",
"align_sorted_dedup_index"
],
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"metrics": {
"additionalProperties": false,
"description": "Coverage metrics output files.",
"properties": {
"all_summaries": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_broad": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mda": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mocha": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"coverage_metrics",
"target_metrics"
],
"type": "object"
},
"optitype": {
"additionalProperties": false,
"description": "HLA output files.",
"properties": {
"optitype_result": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"xhla_report_hla": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
}
},
"required": [
"optitype_result"
],
"type": "object"
}
},
"required": [
"cimac_id"
],
"type": "object"
},
"purity": {
"additionalProperties": false,
"description": "Purity output files.",
"properties": {
"optimal_purity_value": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"optimal_purity_value"
],
"type": "object"
},
"report": {
"additionalProperties": false,
"description": "WES pipeline version/commit string.",
"properties": {
"config": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"metasheet": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
},
"report": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"tumor_germline_overlap": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"tumor_mutational_burden": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_run_version": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_sample_json": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
},
"wes_version": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"config",
"wes_run_version",
"metasheet",
"report",
"wes_sample_json"
],
"type": "object"
},
"rna": {
"additionalProperties": false,
"properties": {
"haplotyper": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter_neoantigen": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"run_id": {
"description": "An id used for a paired analysis run.",
"type": "string"
},
"somatic": {
"additionalProperties": false,
"description": "Somatic variant calling output sample files.",
"oneOf": [
{
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"tnscope_output_twist_filtered_vcf",
"tnscope_output_twist_filtered_maf",
"maf_tnscope_filter",
"tnscope_output_twist_vcf",
"tnscope_output_twist_maf"
]
},
{
"$comment": "added for backwards compatibility",
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"maf_tnscope_filter",
"maf_tnscope_output",
"tnscope_exons"
]
}
],
"properties": {
"maf_tnscope_filter": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"maf_tnscope_output": {
"$comment": "added for backwards compatibility",
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_exons": {
"$comment": "added for backwards compatibility",
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"tnscope_output_twist_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_filter": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_output": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter": {
"$comment": "added for backwards compatibility",
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_tnscope_output": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"tumor": {
"additionalProperties": false,
"description": "Sample wise analysis files for the WES assay.",
"properties": {
"alignment": {
"additionalProperties": false,
"description": "WES output align files.",
"properties": {
"align_recalibrated": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_recalibrated_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
},
"align_sorted_dedup": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_sorted_dedup_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [
"align_sorted_dedup",
"align_sorted_dedup_index"
],
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"metrics": {
"additionalProperties": false,
"description": "Coverage metrics output files.",
"properties": {
"all_summaries": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_broad": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mda": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mocha": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"coverage_metrics",
"target_metrics"
],
"type": "object"
},
"optitype": {
"additionalProperties": false,
"description": "HLA output files.",
"properties": {
"optitype_result": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"xhla_report_hla": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
}
},
"required": [
"optitype_result"
],
"type": "object"
}
},
"required": [
"cimac_id"
],
"type": "object"
}
},
"required": [
"normal",
"tumor",
"run_id"
],
"type": "object"
}
},
"description": "Combined analysis files for the whole WES assay.",
"properties": {
"excluded_samples": {
"$id": "excluded_samples",
"$schema": "metaschema/strict_meta_schema.json#",
"description": "A list of samples excluded from analysis, along with the reasons why.",
"items": {
"additionalProperties": false,
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"reason_excluded": {
"description": "A comment describing why this sample is missing from the pipeline output.",
"type": "string"
}
},
"required": [
"cimac_id",
"reason_excluded"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"pair_runs": {
"items": {
"additionalProperties": false,
"description": "Whole Exome Sequencing assay output files for a tumor normal pair of samples.",
"properties": {
"clonality": {
"additionalProperties": false,
"description": "Clonality output files.",
"properties": {
"clonality_pyclone": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"clonality_table": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"clonality_pyclone",
"clonality_table"
],
"type": "object"
},
"comments": {
"description": "Comments on the paired analysis run.",
"type": "string"
},
"copynumber": {
"additionalProperties": false,
"description": "Copy number output files.",
"properties": {
"copynumber_cnv_calls": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"copynumber_cnv_calls_tsv": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"copynumber_cnv_calls",
"copynumber_cnv_calls_tsv"
],
"type": "object"
},
"corealignments": {
"additionalProperties": false,
"description": "Core-alignments output files.",
"properties": {
"tn_corealigned": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"tn_corealigned_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [],
"type": "object"
},
"error": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"ignore": {
"$comment": "added for backwards compatibility",
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"msisensor": {
"additionalProperties": false,
"description": "MSISensor2 output files.",
"properties": {
"msisensor": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"msisensor"
],
"type": "object"
},
"neoantigen": {
"additionalProperties": false,
"description": "Neoantigen output files.",
"properties": {
"HLA_results": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"combined_filtered": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"HLA_results",
"combined_filtered"
],
"type": "object"
},
"normal": {
"additionalProperties": false,
"description": "Sample wise analysis files for the WES assay.",
"properties": {
"alignment": {
"additionalProperties": false,
"description": "WES output align files.",
"properties": {
"align_recalibrated": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_recalibrated_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
},
"align_sorted_dedup": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_sorted_dedup_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [
"align_sorted_dedup",
"align_sorted_dedup_index"
],
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"metrics": {
"additionalProperties": false,
"description": "Coverage metrics output files.",
"properties": {
"all_summaries": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_broad": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mda": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mocha": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"coverage_metrics",
"target_metrics"
],
"type": "object"
},
"optitype": {
"additionalProperties": false,
"description": "HLA output files.",
"properties": {
"optitype_result": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"xhla_report_hla": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
}
},
"required": [
"optitype_result"
],
"type": "object"
}
},
"required": [
"cimac_id"
],
"type": "object"
},
"purity": {
"additionalProperties": false,
"description": "Purity output files.",
"properties": {
"optimal_purity_value": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"optimal_purity_value"
],
"type": "object"
},
"report": {
"additionalProperties": false,
"description": "WES pipeline version/commit string.",
"properties": {
"config": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"metasheet": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
},
"report": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"tumor_germline_overlap": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"tumor_mutational_burden": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_run_version": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_sample_json": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
},
"wes_version": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"config",
"wes_run_version",
"metasheet",
"report",
"wes_sample_json"
],
"type": "object"
},
"rna": {
"additionalProperties": false,
"properties": {
"haplotyper": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter_neoantigen": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"run_id": {
"description": "An id used for a paired analysis run.",
"type": "string"
},
"somatic": {
"additionalProperties": false,
"description": "Somatic variant calling output sample files.",
"oneOf": [
{
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"tnscope_output_twist_filtered_vcf",
"tnscope_output_twist_filtered_maf",
"maf_tnscope_filter",
"tnscope_output_twist_vcf",
"tnscope_output_twist_maf"
]
},
{
"$comment": "added for backwards compatibility",
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"maf_tnscope_filter",
"maf_tnscope_output",
"tnscope_exons"
]
}
],
"properties": {
"maf_tnscope_filter": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"maf_tnscope_output": {
"$comment": "added for backwards compatibility",
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_exons": {
"$comment": "added for backwards compatibility",
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"tnscope_output_twist_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_filter": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_output": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter": {
"$comment": "added for backwards compatibility",
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_tnscope_output": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"tumor": {
"additionalProperties": false,
"description": "Sample wise analysis files for the WES assay.",
"properties": {
"alignment": {
"additionalProperties": false,
"description": "WES output align files.",
"properties": {
"align_recalibrated": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_recalibrated_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
},
"align_sorted_dedup": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_sorted_dedup_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [
"align_sorted_dedup",
"align_sorted_dedup_index"
],
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"metrics": {
"additionalProperties": false,
"description": "Coverage metrics output files.",
"properties": {
"all_summaries": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_broad": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mda": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mocha": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"coverage_metrics",
"target_metrics"
],
"type": "object"
},
"optitype": {
"additionalProperties": false,
"description": "HLA output files.",
"properties": {
"optitype_result": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"xhla_report_hla": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
}
},
"required": [
"optitype_result"
],
"type": "object"
}
},
"required": [
"cimac_id"
],
"type": "object"
}
},
"required": [
"normal",
"tumor",
"run_id"
],
"type": "object"
},
"mergeOptions": {
"$comment": "TODO fix to merge by a pair of normal and tumor ids. It requires improvements to the merge strategy code.",
"idRef": "/run_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
}
},
"required": [],
"title": "WES analysis combined files",
"type": "object"
},
"wes_tumor_only_analysis": {
"$id": "wes_tumor_only_analysis",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"definitions": {
"sample_analysis": {
"additionalProperties": false,
"description": "Whole Exome Sequencing assay output files for a tumor normal pair of samples.",
"properties": {
"comments": {
"description": "Comments on the tumor-only analysis run.",
"type": "string"
},
"copynumber": {
"additionalProperties": false,
"description": "Copy number output files.",
"properties": {
"copynumber_cnv_calls": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"copynumber_cnv_calls_tsv": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"copynumber_cnv_calls",
"copynumber_cnv_calls_tsv"
],
"type": "object"
},
"error": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"msisensor": {
"additionalProperties": false,
"description": "MSISensor2 output files.",
"properties": {
"msisensor": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"msisensor"
],
"type": "object"
},
"neoantigen": {
"additionalProperties": false,
"description": "Neoantigen output files.",
"properties": {
"HLA_results": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"combined_filtered": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"HLA_results",
"combined_filtered"
],
"type": "object"
},
"report": {
"additionalProperties": false,
"description": "WES pipeline version/commit string.",
"properties": {
"config": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"metasheet": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
},
"report": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"tumor_germline_overlap": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"tumor_mutational_burden": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_run_version": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_sample_json": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
},
"wes_version": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"config",
"wes_run_version",
"metasheet",
"report",
"wes_sample_json"
],
"type": "object"
},
"rna": {
"additionalProperties": false,
"properties": {
"haplotyper": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter_neoantigen": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"run_id": {
"description": "An id used as if this was a paired analysis run.",
"type": "string"
},
"somatic": {
"additionalProperties": false,
"description": "Somatic variant calling output sample files.",
"oneOf": [
{
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"tnscope_output_twist_filtered_vcf",
"tnscope_output_twist_filtered_maf",
"maf_tnscope_filter",
"tnscope_output_twist_vcf",
"tnscope_output_twist_maf"
]
},
{
"$comment": "added for backwards compatibility",
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"maf_tnscope_filter",
"maf_tnscope_output",
"tnscope_exons"
]
}
],
"properties": {
"maf_tnscope_filter": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"maf_tnscope_output": {
"$comment": "added for backwards compatibility",
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_exons": {
"$comment": "added for backwards compatibility",
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"tnscope_output_twist_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_filter": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_output": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter": {
"$comment": "added for backwards compatibility",
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_tnscope_output": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"tumor": {
"additionalProperties": false,
"description": "Sample wise analysis files for the WES assay.",
"properties": {
"alignment": {
"additionalProperties": false,
"description": "WES output align files.",
"properties": {
"align_recalibrated": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_recalibrated_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
},
"align_sorted_dedup": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_sorted_dedup_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [
"align_sorted_dedup",
"align_sorted_dedup_index"
],
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"metrics": {
"additionalProperties": false,
"description": "Coverage metrics output files.",
"properties": {
"all_summaries": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_broad": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mda": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mocha": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"coverage_metrics",
"target_metrics"
],
"type": "object"
},
"optitype": {
"additionalProperties": false,
"description": "HLA output files.",
"properties": {
"optitype_result": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"xhla_report_hla": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
}
},
"required": [
"optitype_result"
],
"type": "object"
}
},
"required": [
"cimac_id"
],
"type": "object"
}
},
"required": [
"run_id",
"somatic",
"report",
"neoantigen",
"copynumber",
"msisensor",
"tumor"
],
"type": "object"
}
},
"description": "Combined analysis files for the whole WES assay.",
"properties": {
"excluded_samples": {
"$id": "excluded_samples",
"$schema": "metaschema/strict_meta_schema.json#",
"description": "A list of samples excluded from analysis, along with the reasons why.",
"items": {
"additionalProperties": false,
"properties": {
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"reason_excluded": {
"description": "A comment describing why this sample is missing from the pipeline output.",
"type": "string"
}
},
"required": [
"cimac_id",
"reason_excluded"
],
"type": "object"
},
"mergeOptions": {
"idRef": "/cimac_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
},
"runs": {
"items": {
"additionalProperties": false,
"description": "Whole Exome Sequencing assay output files for a tumor normal pair of samples.",
"properties": {
"comments": {
"description": "Comments on the tumor-only analysis run.",
"type": "string"
},
"copynumber": {
"additionalProperties": false,
"description": "Copy number output files.",
"properties": {
"copynumber_cnv_calls": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"copynumber_cnv_calls_tsv": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"copynumber_cnv_calls",
"copynumber_cnv_calls_tsv"
],
"type": "object"
},
"error": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"msisensor": {
"additionalProperties": false,
"description": "MSISensor2 output files.",
"properties": {
"msisensor": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"msisensor"
],
"type": "object"
},
"neoantigen": {
"additionalProperties": false,
"description": "Neoantigen output files.",
"properties": {
"HLA_results": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"combined_filtered": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_II_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_epitopes": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"mhc_class_I_filtered_condensed_ranked": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
}
},
"required": [
"HLA_results",
"combined_filtered"
],
"type": "object"
},
"report": {
"additionalProperties": false,
"description": "WES pipeline version/commit string.",
"properties": {
"config": {
"$id": "yaml_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a YAML file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "YAML",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "YAML Artifact",
"type": "object"
},
"metasheet": {
"$id": "csv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a comma separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "CSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "CSV Artifact",
"type": "object"
},
"report": {
"$id": "gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a GZ file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "GZ Artifact",
"type": "object"
},
"tumor_germline_overlap": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"tumor_mutational_burden": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_run_version": {
"$id": "tsv_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a tab Separated file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TSV",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "TSV Artifact",
"type": "object"
},
"wes_sample_json": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
},
"wes_version": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"config",
"wes_run_version",
"metasheet",
"report",
"wes_sample_json"
],
"type": "object"
},
"rna": {
"additionalProperties": false,
"properties": {
"haplotyper": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter_neoantigen": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"run_id": {
"description": "An id used as if this was a paired analysis run.",
"type": "string"
},
"somatic": {
"additionalProperties": false,
"description": "Somatic variant calling output sample files.",
"oneOf": [
{
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"tnscope_output_twist_filtered_vcf",
"tnscope_output_twist_filtered_maf",
"maf_tnscope_filter",
"tnscope_output_twist_vcf",
"tnscope_output_twist_maf"
]
},
{
"$comment": "added for backwards compatibility",
"required": [
"vcf_gz_tnscope_output",
"vcf_gz_tnscope_filter",
"maf_tnscope_filter",
"maf_tnscope_output",
"tnscope_exons"
]
}
],
"properties": {
"maf_tnscope_filter": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"maf_tnscope_output": {
"$comment": "added for backwards compatibility",
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_exons": {
"$comment": "added for backwards compatibility",
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_filtered_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"tnscope_output_twist_maf": {
"$id": "maf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a MAF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "MAF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "MAF Artifact",
"type": "object"
},
"tnscope_output_twist_vcf": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_filter": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_gz_tnscope_output": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_tnscope_filter": {
"$comment": "added for backwards compatibility",
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
},
"vcf_tnscope_output": {
"$id": "vcf_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "VCF Artifact",
"type": "object"
}
},
"type": "object"
},
"tumor": {
"additionalProperties": false,
"description": "Sample wise analysis files for the WES assay.",
"properties": {
"alignment": {
"additionalProperties": false,
"description": "WES output align files.",
"properties": {
"align_recalibrated": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_recalibrated_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
},
"align_sorted_dedup": {
"$id": "bam_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a BAM file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM Artifact",
"type": "object"
},
"align_sorted_dedup_index": {
"$id": "bam_bai_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Bam index file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "BAM.BAI",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "BAM.BAI Artifact",
"type": "object"
}
},
"required": [
"align_sorted_dedup",
"align_sorted_dedup_index"
],
"type": "object"
},
"cimac_id": {
"$comment": "With `in_doc_ref_pattern` here, there's no need to specify it each time cimac_id is $ref'ed, constrain will be pulled in place by ref resolver automatically, assuring that it will be checked for every cimac_id $ref.Id of a sample within this clinical trial, that this record is based upon.",
"description": "Specimen identifier assigned by the CIMAC-CIDC Network. Formatted as C????????.??",
"example": "CTTTP01A1.00",
"in_doc_ref_pattern": "/participants/*/samples/*/cimac_id",
"pattern": "^C[A-Z0-9]{3}[A-Z0-9]{3}[A-Z0-9]{2}.[0-9]{2}$",
"type": "string"
},
"germline": {
"additionalProperties": false,
"description": "Germline variant output sample files.",
"oneOf": [
{
"required": [
"vcf_compare"
]
},
{
"required": [
"haplotyper_targets"
]
}
],
"properties": {
"haplotyper_targets": {
"$id": "vcf_gz_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a Gzipped VCF file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "VCF.GZ",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Gzipped VCF Artifact",
"type": "object"
},
"vcf_compare": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"type": "object"
},
"metrics": {
"additionalProperties": false,
"description": "Coverage metrics output files.",
"properties": {
"all_summaries": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"coverage_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_broad": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mda": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"mosdepth_region_dist_mocha": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"target_metrics_summary": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
}
},
"required": [
"coverage_metrics",
"target_metrics"
],
"type": "object"
},
"optitype": {
"additionalProperties": false,
"description": "HLA output files.",
"properties": {
"optitype_result": {
"$id": "text_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a text file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "TEXT",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Text Artifact",
"type": "object"
},
"xhla_report_hla": {
"$id": "json_artifact",
"$schema": "metaschema/strict_meta_schema.json#",
"additionalProperties": false,
"allOf": [
{
"$id": "artifact_core",
"$schema": "metaschema/strict_meta_schema.json#",
"anyOf": [
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"md5_hash"
]
},
{
"required": [
"object_url",
"uploaded_timestamp",
"file_size_bytes",
"artifact_category",
"crc32c_hash"
]
},
{
"required": [
"upload_placeholder"
]
}
],
"description": "Any file artifact associated with a clinical trial.",
"inheritableBase": true,
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"description": "Data Format.",
"enum": [
"FASTA",
"FASTQ.GZ",
"VCF.GZ",
"IMAGE",
"VCF",
"CSV",
"TSV",
"XLSX",
"NPX",
"ELISA",
"BAM",
"BAM.BAI",
"MAF",
"BINARY",
"TEXT",
"ZIP",
"FCS",
"GZ",
"RCC",
"JSON",
"YAML",
"[NOT SET]"
],
"type": "string"
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "Artifact Core",
"type": "object"
}
],
"description": "Information about a JSON file.",
"mergeStrategy": "objectMerge",
"properties": {
"artifact_category": {
"description": "Artifact category.",
"enum": [
"Assay Artifact from CIMAC",
"Pipeline Artifact",
"Manifest File"
],
"type": "string"
},
"artifact_creator": {
"description": "The name of the center that created this artifact.",
"enum": [
"DFCI",
"Mount Sinai",
"Stanford",
"MD Anderson"
],
"type": "string"
},
"crc32c_hash": {
"description": "CRC32c Hash of artifact.",
"type": "string"
},
"data_format": {
"const": "JSON",
"description": "Data format."
},
"facet_group": {
"description": "The internal data category for this artifact",
"type": "string"
},
"file_name": {
"$comment": "This supposedly get generated from 'gcs_uri_format' field in template schema def.",
"description": "The name of the file with extension.",
"type": "string"
},
"file_size_bytes": {
"description": "File size in bytes.",
"type": "integer"
},
"md5_hash": {
"description": "MD5 Hash of artifact. Not available for composite GCS objects.",
"type": "string"
},
"object_url": {
"description": "URL to artifact within Google Bucket.",
"type": "string"
},
"upload_placeholder": {
"$comment": "It might be something like random uuid or `upload_job_id` to help trace everything back.",
"description": "A placeholder for when artifact file is being uploaded.",
"type": "string"
},
"uploaded_timestamp": {
"description": "Timestamp of when artifact was loaded into the system.",
"format": "date-time",
"type": "string"
},
"uploader": {
"description": "The name of the person uploading the artifact.",
"type": "string"
},
"uuid": {
"description": "UUID of artifact.",
"type": "string"
},
"visible": {
"description": "Indicates if the artifact is visible. If set to false, the artifact is effectively deleted.",
"type": "boolean"
}
},
"title": "JSON Artifact",
"type": "object"
}
},
"required": [
"optitype_result"
],
"type": "object"
}
},
"required": [
"cimac_id"
],
"type": "object"
}
},
"required": [
"run_id",
"somatic",
"report",
"neoantigen",
"copynumber",
"msisensor",
"tumor"
],
"type": "object"
},
"mergeOptions": {
"$comment": "TODO fix to merge by a pair of normal and tumor ids. It requires improvements to the merge strategy code.",
"idRef": "/run_id"
},
"mergeStrategy": "arrayMergeById",
"type": "array"
}
},
"required": [],
"title": "WES tumor-only analysis combined files",
"type": "object"
}
},
"title": "Analysis outputs for assays for this trial.",
"type": "object"
}